data_1P53 # _model_server_result.job_id XEd8hPBzW8YF3quzSIie9g _model_server_result.datetime_utc '2025-03-05 02:10:47' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1p53 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":2269}' # _entry.id 1P53 # _exptl.entry_id 1P53 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 1P53 _cell.length_a 193.7 _cell.length_b 193.7 _cell.length_c 175.3 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P53 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 26 A CYS 210 1_555 A SG CYS 79 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 121 A CYS 305 1_555 A SG CYS 160 A CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 192 A CYS 376 1_555 A SG CYS 208 A CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? disulf ? disulf4 A SG CYS 220 A CYS 404 1_555 A SG CYS 246 A CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? disulf ? disulf5 B SG CYS 26 B CYS 210 1_555 B SG CYS 79 B CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 B SG CYS 121 B CYS 305 1_555 B SG CYS 160 B CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 B SG CYS 192 B CYS 376 1_555 B SG CYS 208 B CYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? disulf ? disulf8 B SG CYS 220 B CYS 404 1_555 B SG CYS 246 B CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? covale ? covale1 A ND2 ASN 56 A ASN 240 1_555 C C1 NAG . A NAG 1240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale2 A ND2 ASN 85 A ASN 269 1_555 D C1 NAG . A NAG 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale3 A ND2 ASN 174 A ASN 358 1_555 E C1 NAG . A NAG 1358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 B ND2 ASN 56 B ASN 240 1_555 G C1 NAG . B NAG 2240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale5 B ND2 ASN 85 B ASN 269 1_555 H C1 NAG . B NAG 2269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale6 B ND2 ASN 174 B ASN 358 1_555 F C1 NAG . B NAG 2358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 NAG sing 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1P53 _atom_sites.fract_transf_matrix[1][1] 0.005163 _atom_sites.fract_transf_matrix[1][2] 0.002981 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005961 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005705 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 NAG A 1 1240 1240 NAG NAG . D 2 NAG A 1 1269 1269 NAG NAG . E 2 NAG A 1 1358 1358 NAG NAG . F 2 NAG B 1 2358 2358 NAG NAG . G 2 NAG B 1 2240 2240 NAG NAG . H 2 NAG B 1 2269 2269 NAG NAG . I 3 HOH A 1 2 2 HOH TIP . I 3 HOH A 2 4 4 HOH TIP . I 3 HOH A 3 6 6 HOH TIP . I 3 HOH A 4 9 9 HOH TIP . I 3 HOH A 5 11 11 HOH TIP . I 3 HOH A 6 12 12 HOH TIP . I 3 HOH A 7 13 13 HOH TIP . I 3 HOH A 8 14 14 HOH TIP . I 3 HOH A 9 15 15 HOH TIP . I 3 HOH A 10 16 16 HOH TIP . I 3 HOH A 11 17 17 HOH TIP . I 3 HOH A 12 18 18 HOH TIP . I 3 HOH A 13 19 19 HOH TIP . I 3 HOH A 14 20 20 HOH TIP . I 3 HOH A 15 21 21 HOH TIP . I 3 HOH A 16 22 22 HOH TIP . I 3 HOH A 17 23 23 HOH TIP . I 3 HOH A 18 26 26 HOH TIP . I 3 HOH A 19 27 27 HOH TIP . I 3 HOH A 20 28 28 HOH TIP . I 3 HOH A 21 32 32 HOH TIP . I 3 HOH A 22 33 33 HOH TIP . I 3 HOH A 23 34 34 HOH TIP . I 3 HOH A 24 36 36 HOH TIP . I 3 HOH A 25 37 37 HOH TIP . I 3 HOH A 26 40 40 HOH TIP . I 3 HOH A 27 42 42 HOH TIP . I 3 HOH A 28 43 43 HOH TIP . I 3 HOH A 29 44 44 HOH TIP . I 3 HOH A 30 46 46 HOH TIP . I 3 HOH A 31 47 47 HOH TIP . I 3 HOH A 32 48 48 HOH TIP . I 3 HOH A 33 49 49 HOH TIP . I 3 HOH A 34 51 51 HOH TIP . I 3 HOH A 35 53 53 HOH TIP . I 3 HOH A 36 54 54 HOH TIP . I 3 HOH A 37 55 55 HOH TIP . I 3 HOH A 38 58 58 HOH TIP . I 3 HOH A 39 60 60 HOH TIP . I 3 HOH A 40 61 61 HOH TIP . I 3 HOH A 41 63 63 HOH TIP . I 3 HOH A 42 64 64 HOH TIP . J 3 HOH B 1 1 1 HOH TIP . J 3 HOH B 2 3 3 HOH TIP . J 3 HOH B 3 5 5 HOH TIP . J 3 HOH B 4 7 7 HOH TIP . J 3 HOH B 5 8 8 HOH TIP . J 3 HOH B 6 10 10 HOH TIP . J 3 HOH B 7 24 24 HOH TIP . J 3 HOH B 8 25 25 HOH TIP . J 3 HOH B 9 29 29 HOH TIP . J 3 HOH B 10 30 30 HOH TIP . J 3 HOH B 11 31 31 HOH TIP . J 3 HOH B 12 35 35 HOH TIP . J 3 HOH B 13 38 38 HOH TIP . J 3 HOH B 14 39 39 HOH TIP . J 3 HOH B 15 41 41 HOH TIP . J 3 HOH B 16 45 45 HOH TIP . J 3 HOH B 17 50 50 HOH TIP . J 3 HOH B 18 52 52 HOH TIP . J 3 HOH B 19 56 56 HOH TIP . J 3 HOH B 20 57 57 HOH TIP . J 3 HOH B 21 59 59 HOH TIP . J 3 HOH B 22 62 62 HOH TIP . J 3 HOH B 23 65 65 HOH TIP . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 NAG . . . H 2 60.075 218.493 49.505 1 58.63 ? C1 NAG 2269 B 1 HETATM 2 C C2 NAG . . . H 2 59.735 219.877 50.096 1 58.63 ? C2 NAG 2269 B 1 HETATM 3 C C3 NAG . . . H 2 60.476 220.99 49.337 1 58.63 ? C3 NAG 2269 B 1 HETATM 4 C C4 NAG . . . H 2 61.96 220.677 49.205 1 58.63 ? C4 NAG 2269 B 1 HETATM 5 C C5 NAG . . . H 2 62.155 219.276 48.631 1 58.63 ? C5 NAG 2269 B 1 HETATM 6 C C6 NAG . . . H 2 63.621 218.863 48.498 1 58.63 ? C6 NAG 2269 B 1 HETATM 7 C C7 NAG . . . H 2 57.764 220.966 49.17 1 58.63 ? C7 NAG 2269 B 1 HETATM 8 C C8 NAG . . . H 2 57.573 220.486 47.733 1 58.63 ? C8 NAG 2269 B 1 HETATM 9 N N2 NAG . . . H 2 58.296 220.104 50.04 1 58.63 ? N2 NAG 2269 B 1 HETATM 10 O O3 NAG . . . H 2 60.324 222.225 50.019 1 58.63 ? O3 NAG 2269 B 1 HETATM 11 O O4 NAG . . . H 2 62.557 221.63 48.34 1 58.63 ? O4 NAG 2269 B 1 HETATM 12 O O5 NAG . . . H 2 61.496 218.307 49.471 1 58.63 ? O5 NAG 2269 B 1 HETATM 13 O O6 NAG . . . H 2 64.218 218.599 49.761 1 58.63 ? O6 NAG 2269 B 1 HETATM 14 O O7 NAG . . . H 2 57.412 222.109 49.49 1 58.63 ? O7 NAG 2269 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #